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Fig. 7. Comparative genomic analysis of the 382 bp ETH gene regulatory
region. (A) VISTA plot of the D. melanogaster assembly in pairwise
alignments with five other Drosophila species. The gray bar, with
tick marks at 50 bp intervals, shows the extent of the 382 bp region. The
percent identity from 50–100% (vertical axis) in a 20 bp window sliding
in 1 bp increments is displayed for each alignment (horizontal axis). Windows
(excluding gaps) that were at least 70% identical with D.
melanogaster are highlighted (non-coding sequences in pink). The
conservation track (bottom plot) shows phastCons scores for the three-way
MULTIZ alignment of D. melanogaster, D. yakuba and D.
pseudoobscura. Two highly conserved regions (CR1 and CR2) exceeded the
0.4 score threshold (broken line). Arrows, direction of transcription;
asterisks, start ATG of the ETH gene [the 5' UTR of
ETH is predicted to be 14 bp long
(Park et al., 1999)]; purple
box, ETH coding sequence; turquoise box, Orc4 3' UTR.
(B) MULTIZ alignment of CR1 and CR2. Bases that were identical in at least
seven Drosophila species are indicated with asterisks with the
consensus sequence shown directly below. Positions marked x below the
consensus denote ATF4, DR4 and E74A binding sites predicted by rVISTA. Four
selected transcription factor binding sites (see Results) are also shown at
the bottom of the alignment, and bases matching the CR1 or CR2 consensus are
highlighted in blue.
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